pycom09g11510

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr9
OG0000468
Physical Location & Seq
Forward (+)
9697303 .. 9697866
564 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom09g11510.1

Sequence Viewer

Length: 492 bp
ATGGCCTTAAGGTCCCAACTGATAGGTACATACTATTTGGTTGATTCTGGATATACGAATGGTGAGGGTTTTCTGGCACCGTATAAAGGCACTAGATACCATTTACAAGATTGGGAAGACAATTCACGTGCACCTAGGAGTCATGAAGAATATTTTAATATGAAACACTCACGTGCTAGGAATGTCATTGAGAGATGTTTTGGCCTTCTCAAACGACGTTGGGCTATCTTACGAAGTCCTTCCCACTATCCAATCAAGATTCAGGGACGGATGATCACCGCATGTAGTTTACTTCATAATTTTATCAGAATGTATATGGCAGTTGATCCTGAGAAAAATGCAAGGCTTGCATTTGATGAATTACCTATAGGGGAAGATTTACCAGAAGTATTAGCCTACATTGAAACCGTTGAGTCAAGTCAAATATGGACTCAATGGAGGGATGATCTTGCAAGAGAAATATATGATGAGTGGAGAGGAAGGAGGGCTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DDE_Tnp_4

Protein Analysis

164

Amino Acids

19.32

Weight (kDa)

7.81

Isoelectric Point (pI)

70.61

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DDE_Tnp_4 PF13359 9 - 100 6.7e-15 DDE superfamily endonuclease
Plant_tran PF04827 43 - 102 6.2e-06 Plant transposon protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000468)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g04030 FvH4_2g09411 FvH4_3g15551 FvH4_3g36421 FvH4_4g11701 FvH4_5g36381 FvH4_6g09143 FvH4_6g09144 FvH4_6g21972
malus_domestica MD00G1096500.v1.1 MD00G1122500.v1.1 MD02G1090600.v1.1 MD02G1173300.v1.1 MD05G1202800.v1.1 MD14G1123600.v1.1
prunus_persica Prupe.1G083600_v2.0.a1 Prupe.1G245300_v2.0.a1 Prupe.5G002100_v2.0.a1 Prupe.6G061200_v2.0.a1
pyrus_communis pycom01g07060 pycom02g13920 pycom04g11780 pycom04g13480 pycom04g21940 pycom06g07950 pycom07g03740 pycom07g03980 pycom09g02010 pycom09g02020 pycom09g11510 pycom09g14260 pycom10g02500 pycom10g15690 pycom12g08730 pycom12g08740 pycom14g19840 pycom15g16780 pycom15g24940 pycom15g25660 pycom16g21630 pycom16g26320
rosa_chinensis RchiOBHm_Chr1g0330371 RchiOBHm_Chr1g0331991 RchiOBHm_Chr6g0300321
rosa_laevigata RLG00000013795
rosa_multiflora Rmu_sc0000060.1_g000010 Rmu_sc0000288.1_g000044 Rmu_sc0002219.1_g000002 Rmu_sc0003995.1_g000003
rosa_roxburghii Rroxscaffold_1G00059020 Rroxscaffold_2G00108450 Rroxscaffold_2G00112460 Rroxscaffold_5G00375700 Rroxscaffold_5G00381640 Rroxscaffold_7G00158590
rosa_rugosa Rorug01G0237300 Rorug01G0237400 Rorug01G0237500 Rorug02G0051900 Rorug03G0260600 Rorug03G0285800 Rorug04G0076800 Rorug04G0162600 Rorug07G0264500 Rorug07G0264500
rosa_samantha Rh2DG003500 Rh3CG244800 Rh4CG334200 Rh5AG318300 Rh5BG549000 Rh7AG126400 Rh7CG118500 Rh7CG154500 Rh7DG025400
rosa_wichuraiana Rw1G026390 Rw2G005400 Rw2G034490 Rw3G019530 Rw3G028000 Rw4G010490 Rw5G010830 Rw5G023340 Rw5G026580 Rw5G041150 Rw6G003010 Rw6G003290 Rw6G010630 Rw6G021220 Rw6G035650 Rw7G014310

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 76
AciI CCGC 1 cut(s) 279
AclWI GGATC 1 cut(s) 320
AcvI CACGTG 2 cut(s) 128, 173
AfaI GTAC 1 cut(s) 28
AfiI CCNNNNNNNGG 1 cut(s) 86
AflII CTTAAG 1 cut(s) 7
AgsI TTSAA 1 cut(s) 404
AleI CACNNNNGTG 1 cut(s) 171
Alw21I GWGCWC 1 cut(s) 133
Alw44I GTGCAC 1 cut(s) 129
AlwI GGATC 1 cut(s) 320
AoxI GGCC 2 cut(s) 3, 202
ApaLI GTGCAC 1 cut(s) 129
Asp700I GAANNNNTTC 1 cut(s) 238
AspA2I CCTAGG 1 cut(s) 134
AspS9I GGNCC 1 cut(s) 12
AsuHPI GGTGA 2 cut(s) 74, 268
AvaII GGWCC 1 cut(s) 12
AvrII CCTAGG 1 cut(s) 134
BaeGI GKGCMC 1 cut(s) 133
BanI GGYRCC 1 cut(s) 76
BbrPI CACGTG 2 cut(s) 128, 173
BbsI GAAGAC 1 cut(s) 123
Bbv12I GWGCWC 1 cut(s) 133
BclI TGATCA 1 cut(s) 273
BfaI CTAG 3 cut(s) 93, 135, 177
BfmI CTRYAG 1 cut(s) 366
BfrI CTTAAG 1 cut(s) 7
BlnI CCTAGG 1 cut(s) 134
Bme18I GGWCC 1 cut(s) 12
BmgT120I GGNCC 1 cut(s) 12
BmiI GGNNCC 2 cut(s) 14, 78
BpiI GAAGAC 1 cut(s) 123
BsaAI YACGTR 2 cut(s) 128, 173
BsaJI CCNNGG 1 cut(s) 134
Bsc4I CCNNNNNNNGG 1 cut(s) 86
BseDI CCNNGG 1 cut(s) 134
BseGI GGATG 2 cut(s) 276, 448
BseLI CCNNNNNNNGG 1 cut(s) 86
BseMII CTCAG 1 cut(s) 321
BseSI GKGCMC 1 cut(s) 133
BshFI GGCC 2 cut(s) 5, 204
BshNI GGYRCC 1 cut(s) 76
BsiHKAI GWGCWC 1 cut(s) 133
BslFI GGGAC 1 cut(s) 279
BslI CCNNNNNNNGG 1 cut(s) 86
BsmFI GGGAC 1 cut(s) 279
BsnI GGCC 2 cut(s) 5, 204
Bsp1286I GDGCHC 1 cut(s) 133
Bsp143I GATC 3 cut(s) 273, 325, 445
BspACI CCGC 1 cut(s) 279
BspANI GGCC 2 cut(s) 5, 204
BspCNI CTCAG 1 cut(s) 322
BspHI TCATGA 1 cut(s) 142
BspLI GGNNCC 2 cut(s) 14, 78
BspPI GGATC 1 cut(s) 320
BspT107I GGYRCC 1 cut(s) 76
BspTI CTTAAG 1 cut(s) 7
BssECI CCNNGG 1 cut(s) 134
BssMI GATC 3 cut(s) 273, 325, 445
BssT1I CCWWGG 1 cut(s) 134
Bst4CI ACNGT 2 cut(s) 81, 409
BstAFI CTTAAG 1 cut(s) 7
BstAPI GCANNNNNTGC 1 cut(s) 347
BstBAI YACGTR 2 cut(s) 128, 173
BstC8I GCNNGC 1 cut(s) 348
BstDEI CTNAG 1 cut(s) 330
BstF5I GGATG 2 cut(s) 276, 448
BstKTI GATC 3 cut(s) 276, 328, 448
BstMBI GATC 3 cut(s) 273, 325, 445
BstMWI GCNNNNNNNGC 1 cut(s) 347
BstNSI RCATGY 1 cut(s) 285
BstSFI CTRYAG 1 cut(s) 366
BstSLI GKGCMC 1 cut(s) 133
BstV2I GAAGAC 1 cut(s) 123
BsuRI GGCC 2 cut(s) 5, 204
BtsCI GGATG 2 cut(s) 276, 448
Cac8I GCNNGC 1 cut(s) 348
CciI TCATGA 1 cut(s) 142
Cfr13I GGNCC 1 cut(s) 12
Csp6I GTAC 1 cut(s) 27
CviAII CATG 2 cut(s) 143, 282
CviJI RGCY 6 cut(s) 5, 204, 224, 346, 395, 488
CviKI_1 RGCY 6 cut(s) 5, 204, 224, 346, 395, 488
CviQI GTAC 1 cut(s) 27
DdeI CTNAG 1 cut(s) 330
DpnI GATC 3 cut(s) 275, 327, 447
DpnII GATC 3 cut(s) 273, 325, 445
Eco130I CCWWGG 1 cut(s) 134
Eco47I GGWCC 1 cut(s) 12
Eco72I CACGTG 2 cut(s) 128, 173
EcoO109I RGGNCCY 1 cut(s) 12
EcoT14I CCWWGG 1 cut(s) 134
ErhI CCWWGG 1 cut(s) 134
FaeI CATG 2 cut(s) 146, 285
FalI AAGNNNNNCTT 1 cut(s) 472
FaqI GGGAC 1 cut(s) 279
FatI CATG 2 cut(s) 142, 281
FbaI TGATCA 1 cut(s) 273
FokI GGATG 2 cut(s) 283, 455
FspBI CTAG 3 cut(s) 93, 135, 177
HaeIII GGCC 2 cut(s) 5, 204
Hin1II CATG 2 cut(s) 146, 285
HinfI GANTC 5 cut(s) 44, 139, 259, 413, 430
HphI GGTGA 2 cut(s) 74, 268
Hpy166II GTNNAC 2 cut(s) 131, 290
Hpy188I TCNGA 1 cut(s) 308
Hpy188III TCNNGA 4 cut(s) 48, 143, 256, 329
Hpy8I GTNNAC 2 cut(s) 131, 290
Hpy99I CGWCG 1 cut(s) 219
HpyAV CCTTC 3 cut(s) 215, 249, 474
HpyCH4III ACNGT 2 cut(s) 81, 409
HpyCH4IV ACGT 3 cut(s) 127, 172, 217
HpyCH4V TGCA 4 cut(s) 131, 341, 350, 452
HpyF10VI GCNNNNNNNGC 1 cut(s) 347
HpyF3I CTNAG 1 cut(s) 330
HpySE526I ACGT 3 cut(s) 127, 172, 217
Hsp92II CATG 2 cut(s) 146, 285
Ksp22I TGATCA 1 cut(s) 273
Kzo9I GATC 3 cut(s) 273, 325, 445
LpnPI CCDG 5 cut(s) 33, 59, 248, 342, 396
MaeI CTAG 3 cut(s) 93, 135, 177
MaeII ACGT 3 cut(s) 127, 172, 217
MalI GATC 3 cut(s) 275, 327, 447
MboI GATC 3 cut(s) 273, 325, 445
MboII GAAGA 3 cut(s) 128, 158, 386
MhlI GDGCHC 1 cut(s) 133
MluCI AATT 3 cut(s) 121, 298, 359
MlyI GAGTC 3 cut(s) 148, 422, 424
MnlI CCTC 4 cut(s) 58, 432, 470, 477
MroXI GAANNNNTTC 1 cut(s) 238
MseI TTAA 2 cut(s) 8, 156
MslI CAYNNNNRTG 1 cut(s) 171
MspCI CTTAAG 1 cut(s) 7
MwoI GCNNNNNNNGC 1 cut(s) 347
NdeII GATC 3 cut(s) 273, 325, 445
NlaIII CATG 2 cut(s) 146, 285
NlaIV GGNNCC 2 cut(s) 14, 78
NspI RCATGY 1 cut(s) 285
OliI CACNNNNGTG 1 cut(s) 171
PagI TCATGA 1 cut(s) 142
PdmI GAANNNNTTC 1 cut(s) 238
PfeI GAWTC 2 cut(s) 44, 259
PleI GAGTC 3 cut(s) 147, 421, 424
PmaCI CACGTG 2 cut(s) 128, 173
PmlI CACGTG 2 cut(s) 128, 173
PpsI GAGTC 3 cut(s) 147, 421, 424
Ppu21I YACGTR 2 cut(s) 128, 173
PpuMI RGGWCCY 1 cut(s) 12
Psp5II RGGWCCY 1 cut(s) 12
PspCI CACGTG 2 cut(s) 128, 173
PspN4I GGNNCC 2 cut(s) 14, 78
PspPI GGNCC 1 cut(s) 12
PspPPI RGGWCCY 1 cut(s) 12
RsaI GTAC 1 cut(s) 28
RsaNI GTAC 1 cut(s) 27
RseI CAYNNNNRTG 1 cut(s) 171
SaqAI TTAA 2 cut(s) 8, 156
Sau3AI GATC 3 cut(s) 273, 325, 445
Sau96I GGNCC 1 cut(s) 12
SchI GAGTC 3 cut(s) 148, 422, 424
SduI GDGCHC 1 cut(s) 133
SetI ASST 7 cut(s) 14, 28, 130, 136, 175, 220, 367
SfcI CTRYAG 1 cut(s) 366
SinI GGWCC 1 cut(s) 12
SmiMI CAYNNNNRTG 1 cut(s) 171
SmlI CTYRAG 1 cut(s) 7
SmoI CTYRAG 1 cut(s) 7
Sse9I AATT 3 cut(s) 121, 298, 359
SsiI CCGC 1 cut(s) 279
SspI AATATT 1 cut(s) 152
SspMI CTAG 3 cut(s) 93, 135, 177
StyI CCWWGG 1 cut(s) 134
TaaI ACNGT 2 cut(s) 81, 409
TaiI ACGT 3 cut(s) 130, 175, 220
TasI AATT 3 cut(s) 121, 298, 359
TfiI GAWTC 2 cut(s) 44, 259
Tru1I TTAA 2 cut(s) 8, 156
Tru9I TTAA 2 cut(s) 8, 156
TspDTI ATGAA 4 cut(s) 159, 176, 284, 372
TspGWI ACGGA 1 cut(s) 283
Vha464I CTTAAG 1 cut(s) 7
VneI GTGCAC 1 cut(s) 129
VpaK11BI GGWCC 1 cut(s) 12
XceI RCATGY 1 cut(s) 285
XmaJI CCTAGG 1 cut(s) 134
XmnI GAANNNNTTC 1 cut(s) 238
XspI CTAG 3 cut(s) 93, 135, 177
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.